Query psy16238
Match_columns 123
No_of_seqs 119 out of 1039
Neff 4.6
Searched_HMMs 46136
Date Fri Aug 16 16:21:10 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16238.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16238hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PHA02713 hypothetical protein; 99.5 5.3E-15 1.1E-19 129.1 4.5 56 11-67 6-61 (557)
2 KOG4441|consensus 99.5 4.6E-15 1E-19 130.6 3.8 71 5-77 11-81 (571)
3 PHA02790 Kelch-like protein; P 99.3 1.8E-12 3.9E-17 110.9 2.9 48 18-68 10-57 (480)
4 PF00651 BTB: BTB/POZ domain; 99.1 2.4E-11 5.2E-16 82.4 2.6 44 21-65 1-44 (111)
5 PHA03098 kelch-like protein; P 98.9 2.3E-10 4.9E-15 97.5 1.3 39 27-67 6-46 (534)
6 KOG4350|consensus 98.6 1.9E-08 4.1E-13 88.3 1.0 51 16-68 30-80 (620)
7 smart00225 BTB Broad-Complex, 98.4 2.1E-07 4.4E-12 58.9 2.3 34 32-67 1-34 (90)
8 KOG2075|consensus 97.7 2.3E-05 5.1E-10 69.4 3.5 69 7-76 91-163 (521)
9 KOG4591|consensus 97.2 0.00022 4.8E-09 58.3 2.3 48 11-59 47-96 (280)
10 KOG0783|consensus 96.8 0.00035 7.6E-09 66.1 0.6 56 27-91 707-762 (1267)
11 KOG0783|consensus 96.8 0.0012 2.6E-08 62.6 3.5 47 17-65 541-591 (1267)
12 KOG2838|consensus 94.2 0.019 4.2E-07 49.0 1.1 52 14-67 114-165 (401)
13 KOG4682|consensus 93.0 0.11 2.4E-06 46.1 3.7 45 20-67 59-103 (488)
14 KOG2838|consensus 90.4 0.075 1.6E-06 45.5 -0.1 46 19-65 224-284 (401)
15 PF03931 Skp1_POZ: Skp1 family 80.4 0.75 1.6E-05 29.4 0.7 33 33-67 3-35 (62)
16 KOG3863|consensus 79.2 0.29 6.4E-06 44.8 -2.0 41 18-65 2-42 (604)
17 KOG0511|consensus 59.6 1.5 3.2E-05 39.1 -1.9 40 31-71 150-190 (516)
18 KOG0511|consensus 42.8 5.5 0.00012 35.6 -1.1 32 31-64 179-210 (516)
19 KOG1987|consensus 37.5 17 0.00036 28.9 1.0 35 30-65 98-133 (297)
20 smart00512 Skp1 Found in Skp1 35.6 22 0.00048 24.4 1.3 31 33-65 4-34 (104)
21 PF02214 BTB_2: BTB/POZ domain 26.9 20 0.00044 23.8 -0.1 31 33-65 1-32 (94)
22 KOG3473|consensus 21.7 73 0.0016 23.5 1.9 31 33-65 19-49 (112)
23 PF04343 DUF488: Protein of un 21.1 57 0.0012 22.9 1.3 20 33-53 101-120 (122)
No 1
>PHA02713 hypothetical protein; Provisional
Probab=99.53 E-value=5.3e-15 Score=129.11 Aligned_cols=56 Identities=16% Similarity=0.134 Sum_probs=51.4
Q ss_pred CCcHHHHHHHHHHHhhcCCCccEEEecCCCceEecccceeeecCCcchHHhhcCCCC
Q psy16238 11 NNHQSHLLNAFDSLLQNETLVDVTLARPRRRSGEACGAQDLSKCPAGSPDAFIDGPE 67 (123)
Q Consensus 11 ~~h~s~ll~~L~~LR~~~~l~DVtL~v~dg~~f~AHKv~VLAA~S~YFr~mF~~~p~ 67 (123)
..|...++..|++||.++.||||+|.+++|++|+|||+ ||||||+||++||++++.
T Consensus 6 ~~h~~~~l~~l~~lr~~~~l~DV~L~v~~~~~f~~Hr~-vLaa~S~YF~amF~~~~~ 61 (557)
T PHA02713 6 IKHNRRVVSNISNLLDDDILCDVIITIGDGEEIKAHKT-ILAAGSKYFRTLFTTPMI 61 (557)
T ss_pred hhhhHHHHHHHHHHHhCCCCCCEEEEeCCCCEEeehHH-HHhhcCHHHHHHhcCCch
Confidence 46899999999999999999999999954789999995 999999999999998754
No 2
>KOG4441|consensus
Probab=99.53 E-value=4.6e-15 Score=130.59 Aligned_cols=71 Identities=21% Similarity=0.205 Sum_probs=59.7
Q ss_pred ceeeecCCcHHHHHHHHHHHhhcCCCccEEEecCCCceEecccceeeecCCcchHHhhcCCCCCCceeeeccc
Q psy16238 5 HYSLRWNNHQSHLLNAFDSLLQNETLVDVTLARPRRRSGEACGAQDLSKCPAGSPDAFIDGPEIPENLSTKKS 77 (123)
Q Consensus 5 ~~~l~w~~h~s~ll~~L~~LR~~~~l~DVtL~v~dg~~f~AHKv~VLAA~S~YFr~mF~~~p~~~~~l~v~~~ 77 (123)
...+....|...+++.|+.||+++.||||+|.++ +++|+|||+ |||||||||++||+++..+...-.+...
T Consensus 11 ~~~~~~~~h~~~~l~~l~~lr~~~~lcDv~L~v~-~~~~~aHR~-VLAa~S~YFraMFt~~l~e~~~~~i~l~ 81 (571)
T KOG4441|consen 11 TSEFTDPSHSKFLLQGLNELREEGLLCDVTLLVG-DREFPAHRV-VLAACSPYFRAMFTSGLKESKQKEINLE 81 (571)
T ss_pred ccccccHHHHHHHHHHHHHHHHhCCCceEEEEEC-CeeechHHH-HHHhccHHHHHHhcCCcccccceEEEEe
Confidence 3456677899999999999999999999999997 899999995 9999999999999986554444443333
No 3
>PHA02790 Kelch-like protein; Provisional
Probab=99.27 E-value=1.8e-12 Score=110.95 Aligned_cols=48 Identities=8% Similarity=-0.142 Sum_probs=40.8
Q ss_pred HHHHHHHhhcCCCccEEEecCCCceEecccceeeecCCcchHHhhcCCCCC
Q psy16238 18 LNAFDSLLQNETLVDVTLARPRRRSGEACGAQDLSKCPAGSPDAFIDGPEI 68 (123)
Q Consensus 18 l~~L~~LR~~~~l~DVtL~v~dg~~f~AHKv~VLAA~S~YFr~mF~~~p~~ 68 (123)
...+-.||..+.||||++++ |++|+|||+ ||||||||||+||++++.+
T Consensus 10 ~~~~~~~~~~~~~~~~~~~~--~~~~~~HR~-VLAa~S~YFraMF~~~~~E 57 (480)
T PHA02790 10 CKNILALSMTKKFKTIIEAI--GGNIIVNST-ILKKLSPYFRTHLRQKYTK 57 (480)
T ss_pred hhhHHHHHhhhhhceEEEEc--CcEEeeehh-hhhhcCHHHHHHhcCCccc
Confidence 34455789999999998888 579999995 9999999999999987643
No 4
>PF00651 BTB: BTB/POZ domain; InterPro: IPR013069 The BTB (for BR-C, ttk and bab) [] or POZ (for Pox virus and Zinc finger) [] domain is present near the N terminus of a fraction of zinc finger (IPR007087 from INTERPRO) proteins and in proteins that contain the IPR006652 from INTERPRO motif such as Kelch and a family of pox virus proteins. The BTB/POZ domain mediates homomeric dimerisation and in some instances heteromeric dimerisation []. The structure of the dimerised PLZF BTB/POZ domain has been solved and consists of a tightly intertwined homodimer. The central scaffolding of the protein is made up of a cluster of alpha-helices flanked by short beta-sheets at both the top and bottom of the molecule []. POZ domains from several zinc finger proteins have been shown to mediate transcriptional repression and to interact with components of histone deacetylase co-repressor complexes including N-CoR and SMRT [, , ]. The POZ or BTB domain is also known as BR-C/Ttk or ZiN.; GO: 0005515 protein binding; PDB: 3M5B_A 1R28_B 3LBZ_A 3E4U_F 3BIM_B 1R2B_A 1R29_A 2VPK_A 2YY9_B 3GA1_A ....
Probab=99.13 E-value=2.4e-11 Score=82.35 Aligned_cols=44 Identities=14% Similarity=0.110 Sum_probs=38.2
Q ss_pred HHHHhhcCCCccEEEecCCCceEecccceeeecCCcchHHhhcCC
Q psy16238 21 FDSLLQNETLVDVTLARPRRRSGEACGAQDLSKCPAGSPDAFIDG 65 (123)
Q Consensus 21 L~~LR~~~~l~DVtL~v~dg~~f~AHKv~VLAA~S~YFr~mF~~~ 65 (123)
|+++++++.++|++|.++||+.|+||| .||+++|+||+.||.+.
T Consensus 1 ~~~~~~~~~~~D~~i~v~d~~~~~vhk-~iL~~~S~~F~~~~~~~ 44 (111)
T PF00651_consen 1 LNDLFNSNEFSDVTIRVGDGKTFYVHK-NILAARSPYFRNLFEGS 44 (111)
T ss_dssp HHHHHHHTTS--EEEEETTTEEEEE-H-HHHHHHBHHHHHHHTTT
T ss_pred ChHHHcCCCCCCEEEEECCCEEEeech-hhhhccchhhhhccccc
Confidence 688999999999999997689999999 59999999999999987
No 5
>PHA03098 kelch-like protein; Provisional
Probab=98.94 E-value=2.3e-10 Score=97.49 Aligned_cols=39 Identities=10% Similarity=-0.055 Sum_probs=35.9
Q ss_pred cCCCccEEEec--CCCceEecccceeeecCCcchHHhhcCCCC
Q psy16238 27 NETLVDVTLAR--PRRRSGEACGAQDLSKCPAGSPDAFIDGPE 67 (123)
Q Consensus 27 ~~~l~DVtL~v--~dg~~f~AHKv~VLAA~S~YFr~mF~~~p~ 67 (123)
++.||||+|.+ + |++|+|||+ ||||+|+||++||.+.+.
T Consensus 6 ~~~~~Dv~l~~~~~-~~~~~~Hk~-vLaa~S~yF~~mf~~~~~ 46 (534)
T PHA03098 6 LQKFCDESIIIVNG-GGIIKVHKI-ILSSSSEYFKKMFKNNFK 46 (534)
T ss_pred cCCCCCEEEEEEcC-CEEEEeHHH-HHHhhhHHHHHHHhCCCC
Confidence 88999999987 6 999999995 999999999999998765
No 6
>KOG4350|consensus
Probab=98.55 E-value=1.9e-08 Score=88.33 Aligned_cols=51 Identities=20% Similarity=0.158 Sum_probs=45.9
Q ss_pred HHHHHHHHHhhcCCCccEEEecCCCceEecccceeeecCCcchHHhhcCCCCC
Q psy16238 16 HLLNAFDSLLQNETLVDVTLARPRRRSGEACGAQDLSKCPAGSPDAFIDGPEI 68 (123)
Q Consensus 16 ~ll~~L~~LR~~~~l~DVtL~v~dg~~f~AHKv~VLAA~S~YFr~mF~~~p~~ 68 (123)
++.+.|.+|.-+..+.|||++++ ..+|||||+ ||||+|.|||+|+-+++..
T Consensus 30 ~fS~~~~~l~~~e~y~DVtfvve-~~rfpAHRv-ILAaRs~yFRAlLYgGm~E 80 (620)
T KOG4350|consen 30 NFSQSFDELFTSEDYSDVTFVVE-DTRFPAHRV-ILAARSSYFRALLYGGMQE 80 (620)
T ss_pred chhHHHHHHhhcCcccceEEEEe-ccccchhhh-hHHHHHHHHHHHHhhhhhh
Confidence 44788999999999999999998 799999995 9999999999999987643
No 7
>smart00225 BTB Broad-Complex, Tramtrack and Bric a brac. Domain in Broad-Complex, Tramtrack and Bric a brac. Also known as POZ (poxvirus and zinc finger) domain. Known to be a protein-protein interaction motif found at the N-termini of several C2H2-type transcription factors as well as Shaw-type potassium channels. Known structure reveals a tightly intertwined dimer formed via interactions between N-terminal strand and helix structures. However in a subset of BTB/POZ domains, these two secondary structures appear to be missing. Be aware SMART predicts BTB/POZ domains without the beta1- and alpha1-secondary structures.
Probab=98.38 E-value=2.1e-07 Score=58.90 Aligned_cols=34 Identities=26% Similarity=0.190 Sum_probs=30.7
Q ss_pred cEEEecCCCceEecccceeeecCCcchHHhhcCCCC
Q psy16238 32 DVTLARPRRRSGEACGAQDLSKCPAGSPDAFIDGPE 67 (123)
Q Consensus 32 DVtL~v~dg~~f~AHKv~VLAA~S~YFr~mF~~~p~ 67 (123)
||+|.++ |+.|++||. ||++.|+||+.||.+.+.
T Consensus 1 dv~i~v~-~~~~~~h~~-iL~~~s~~f~~~~~~~~~ 34 (90)
T smart00225 1 DVTLVVG-GKKFKAHKA-VLAACSPYFKALFSGDFK 34 (90)
T ss_pred CeEEEEC-CEEEehHHH-HHhhcCHHHHHHHcCCCc
Confidence 7899997 899999995 999999999999997654
No 8
>KOG2075|consensus
Probab=97.74 E-value=2.3e-05 Score=69.44 Aligned_cols=69 Identities=17% Similarity=0.172 Sum_probs=56.8
Q ss_pred eeecCCcHHHHHHHHHHHhhcCCCccEEEecCC----CceEecccceeeecCCcchHHhhcCCCCCCceeeecc
Q psy16238 7 SLRWNNHQSHLLNAFDSLLQNETLVDVTLARPR----RRSGEACGAQDLSKCPAGSPDAFIDGPEIPENLSTKK 76 (123)
Q Consensus 7 ~l~w~~h~s~ll~~L~~LR~~~~l~DVtL~v~d----g~~f~AHKv~VLAA~S~YFr~mF~~~p~~~~~l~v~~ 76 (123)
-+.|......+....-.+..+..++||.+++++ .+.||||| .|||..|..|.+||.++.-.....++..
T Consensus 91 ~~nwq~~~~t~~er~~~l~~n~~~adv~fivg~~~~~~q~~paHk-~vla~gS~VFdaMf~g~~a~~~s~ei~l 163 (521)
T KOG2075|consen 91 IPNWQAQKETMRERQAALFNNELLADVHFIVGEEDGGSQRIPAHK-LVLADGSDVFDAMFYGGLAEDASLEIRL 163 (521)
T ss_pred CcccccchhhHHHhhHhhccCcccceeEEEeccCCCcccccchhh-hhhhcchHHHHHHhccCcccccCceeec
Confidence 467888889999999999999999999999863 26899999 6999999999999998765443333333
No 9
>KOG4591|consensus
Probab=97.18 E-value=0.00022 Score=58.33 Aligned_cols=48 Identities=19% Similarity=0.095 Sum_probs=42.2
Q ss_pred CCcHHHHHHHHHHHhhcCCCccEEEecCC--CceEecccceeeecCCcchH
Q psy16238 11 NNHQSHLLNAFDSLLQNETLVDVTLARPR--RRSGEACGAQDLSKCPAGSP 59 (123)
Q Consensus 11 ~~h~s~ll~~L~~LR~~~~l~DVtL~v~d--g~~f~AHKv~VLAA~S~YFr 59 (123)
.++.+.++..-.+|++..+|+|+++.++| .+.+|||| .||||+|++..
T Consensus 47 dSF~SRLLaitadL~Ek~qfSDlk~K~~gns~k~i~AHK-fVLAARsD~Wk 96 (280)
T KOG4591|consen 47 DSFISRLLAITADLLEKEQFSDLKFKFAGNSDKHIPAHK-FVLAARSDFWK 96 (280)
T ss_pred hhHHHHHHHHHHHHhhcccccceeEEecCCccccCchhh-hhhhhhcchhh
Confidence 46888999999999999999999998863 26799999 69999999874
No 10
>KOG0783|consensus
Probab=96.83 E-value=0.00035 Score=66.05 Aligned_cols=56 Identities=16% Similarity=-0.070 Sum_probs=40.2
Q ss_pred cCCCccEEEecCCCceEecccceeeecCCcchHHhhcCCCCCCceeeecccCCCccccCCCcccc
Q psy16238 27 NETLVDVTLARPRRRSGEACGAQDLSKCPAGSPDAFIDGPEIPENLSTKKSGPCTAENNNKTSAH 91 (123)
Q Consensus 27 ~~~l~DVtL~v~dg~~f~AHKv~VLAA~S~YFr~mF~~~p~~~~~l~v~~~~~~~~~~~~~~~~~ 91 (123)
....-|+.|.+.||+.|+||| ++|+|+++||..||.....+.. -|+++.+-.|+.|
T Consensus 707 h~e~~d~~i~~KDGkvl~aHk-c~L~aRlEYF~smf~~~w~E~s--------S~t~~~~p~~~e~ 762 (1267)
T KOG0783|consen 707 HEETMDTVIKLKDGKVLKAHK-CFLSARLEYFSSMFQFVWMESS--------SITVNLSPLTVEH 762 (1267)
T ss_pred CccceeEEEEecCCcCcccce-eEeeeHHHHHHHHHHHHHhhhc--------cceeecCcchHHH
Confidence 356667777777899999999 5999999999999986432221 1555555555544
No 11
>KOG0783|consensus
Probab=96.76 E-value=0.0012 Score=62.62 Aligned_cols=47 Identities=17% Similarity=0.093 Sum_probs=38.3
Q ss_pred HHHHHHHHhh----cCCCccEEEecCCCceEecccceeeecCCcchHHhhcCC
Q psy16238 17 LLNAFDSLLQ----NETLVDVTLARPRRRSGEACGAQDLSKCPAGSPDAFIDG 65 (123)
Q Consensus 17 ll~~L~~LR~----~~~l~DVtL~v~dg~~f~AHKv~VLAA~S~YFr~mF~~~ 65 (123)
+-..|..|.. ...+-|||+.|+ ++.|+||| .||++.|+|||.+|...
T Consensus 541 fe~sf~kLl~e~~~~ds~hDVtf~vg-~~~F~aHK-fIl~~rs~flrkL~l~~ 591 (1267)
T KOG0783|consen 541 FEGSFPKLLSEENYKDSFHDVTFYVG-TSMFHAHK-FILCARSSFLRKLLLQK 591 (1267)
T ss_pred chhhhHHHhhccccccccceEEEEec-Ceecccce-EEEEeccHHHHHHHHhh
Confidence 4445555554 446789999997 99999999 79999999999999754
No 12
>KOG2838|consensus
Probab=94.24 E-value=0.019 Score=49.01 Aligned_cols=52 Identities=13% Similarity=-0.060 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHhhcCCCccEEEecCCCceEecccceeeecCCcchHHhhcCCCC
Q psy16238 14 QSHLLNAFDSLLQNETLVDVTLARPRRRSGEACGAQDLSKCPAGSPDAFIDGPE 67 (123)
Q Consensus 14 ~s~ll~~L~~LR~~~~l~DVtL~v~dg~~f~AHKv~VLAA~S~YFr~mF~~~p~ 67 (123)
...++..|.++++...-.|+-|... -..|||||+ +||+++|+|+.+....++
T Consensus 114 a~sf~kD~ad~ye~k~c~dldiiFk-eTcfpahRA-~laaRCpffK~l~nsd~e 165 (401)
T KOG2838|consen 114 ANSFLKDFADGYERKVCGDLDIIFK-ETCFPAHRA-FLAARCPFFKILANSDEE 165 (401)
T ss_pred hhHHHHHHhhhhheeeeccceeeee-eccchHHHH-HHHhhCcchhhhccCCCC
Confidence 3456778888887778888888886 678999995 999999999999887665
No 13
>KOG4682|consensus
Probab=93.04 E-value=0.11 Score=46.06 Aligned_cols=45 Identities=13% Similarity=-0.019 Sum_probs=38.2
Q ss_pred HHHHHhhcCCCccEEEecCCCceEecccceeeecCCcchHHhhcCCCC
Q psy16238 20 AFDSLLQNETLVDVTLARPRRRSGEACGAQDLSKCPAGSPDAFIDGPE 67 (123)
Q Consensus 20 ~L~~LR~~~~l~DVtL~v~dg~~f~AHKv~VLAA~S~YFr~mF~~~p~ 67 (123)
.+..|..+|.-+||+|.+= |++++-||. -|.- |+||.+||.+...
T Consensus 59 iyq~lf~q~enSDv~l~al-g~eWrlHk~-yL~Q-S~yf~smf~Gtw~ 103 (488)
T KOG4682|consen 59 IYQNLFLQGENSDVILEAL-GFEWRLHKP-YLFQ-SEYFKSMFSGTWK 103 (488)
T ss_pred HHHHHHhcCCCcceehhhc-cceeeeeee-eeec-cHHHHHHhccccC
Confidence 4677888999999999886 899999993 7765 7999999998654
No 14
>KOG2838|consensus
Probab=90.44 E-value=0.075 Score=45.49 Aligned_cols=46 Identities=7% Similarity=-0.018 Sum_probs=31.7
Q ss_pred HHHHHHhhcCCCccEE-EecCCCc--------------eEecccceeeecCCcchHHhhcCC
Q psy16238 19 NAFDSLLQNETLVDVT-LARPRRR--------------SGEACGAQDLSKCPAGSPDAFIDG 65 (123)
Q Consensus 19 ~~L~~LR~~~~l~DVt-L~v~dg~--------------~f~AHKv~VLAA~S~YFr~mF~~~ 65 (123)
..+..|++....-|+. +.+.||+ +++||+ +|.||+|++||.++...
T Consensus 224 ~Dmkglfd~~c~~d~li~~ssD~elveafggeeNc~deeikahk-ai~aaRS~ffRnLL~Rk 284 (401)
T KOG2838|consen 224 EDMKGLFDQDCKHDDLIIESSDGELVEAFGGEENCEDEEIKAHK-AIAAARSKFFRNLLLRK 284 (401)
T ss_pred HHHHHHHHhhcccCcEEEEeccchhhhhcCCcccchhHHHHHHH-HHHHhhhHHHHHHHHHH
Confidence 3455566655555544 4333354 699999 59999999999999753
No 15
>PF03931 Skp1_POZ: Skp1 family, tetramerisation domain; InterPro: IPR016073 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a POZ domain with a core structure consisting of beta(2)/alpha(2)/beta(2)/alpha(2) in two layers, alpha/beta. This domain is found at the N-terminal of SKP1 proteins [] as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. ; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 1LM8_C 2XAI_E 1VCB_E 3ZRC_K 3ZRF_E 3DCG_B 2C9W_C 1LQB_B 2IZV_C 1HV2_A ....
Probab=80.40 E-value=0.75 Score=29.38 Aligned_cols=33 Identities=15% Similarity=0.082 Sum_probs=27.2
Q ss_pred EEEecCCCceEecccceeeecCCcchHHhhcCCCC
Q psy16238 33 VTLARPRRRSGEACGAQDLSKCPAGSPDAFIDGPE 67 (123)
Q Consensus 33 VtL~v~dg~~f~AHKv~VLAA~S~YFr~mF~~~p~ 67 (123)
|+|+..||+.|.+-+ -.|..|..++.||.+...
T Consensus 3 v~L~SsDg~~f~V~~--~~a~~S~~i~~ml~~~~~ 35 (62)
T PF03931_consen 3 VKLVSSDGQEFEVSR--EAAKQSKTIKNMLEDLGD 35 (62)
T ss_dssp EEEEETTSEEEEEEH--HHHTTSHHHHHHHHCTCC
T ss_pred EEEEcCCCCEEEeeH--HHHHHhHHHHHHHhhhcc
Confidence 678887899999998 466789999999986543
No 16
>KOG3863|consensus
Probab=79.23 E-value=0.29 Score=44.81 Aligned_cols=41 Identities=20% Similarity=0.220 Sum_probs=34.2
Q ss_pred HHHHHHHhhcCCCccEEEecCCCceEecccceeeecCCcchHHhhcCC
Q psy16238 18 LNAFDSLLQNETLVDVTLARPRRRSGEACGAQDLSKCPAGSPDAFIDG 65 (123)
Q Consensus 18 l~~L~~LR~~~~l~DVtL~v~dg~~f~AHKv~VLAA~S~YFr~mF~~~ 65 (123)
+..+++.|....+|||++.+. ++.|.+|+ ||.||..-..+.
T Consensus 2 ~~~~~~qr~~~~~~~~~~~~~-~~~f~~~~------~~e~~~~~~~G~ 42 (604)
T KOG3863|consen 2 LLSLNDQRKKDVLCDVTAFVE-RQGFRAHR------CSEYFTSRIVGQ 42 (604)
T ss_pred CccccccccccccchhHHHHh-ccccccee------ccchhhhhhccc
Confidence 346788899999999999998 99999999 699996655543
No 17
>KOG0511|consensus
Probab=59.59 E-value=1.5 Score=39.13 Aligned_cols=40 Identities=10% Similarity=-0.160 Sum_probs=25.2
Q ss_pred ccEEEecCCCceEecccceeeecCCcchHHhhc-CCCCCCce
Q psy16238 31 VDVTLARPRRRSGEACGAQDLSKCPAGSPDAFI-DGPEIPEN 71 (123)
Q Consensus 31 ~DVtL~v~dg~~f~AHKv~VLAA~S~YFr~mF~-~~p~~~~~ 71 (123)
.|+++....|+-|-||| ..|+|.|.||..-|. -.+.++++
T Consensus 150 ~di~f~~q~g~~f~ahk-fll~arSs~~~~k~v~~~~~~heI 190 (516)
T KOG0511|consen 150 HDIDFLQQEGANFDAHK-FLLEARSSNYFPKDVMFYVQGHEI 190 (516)
T ss_pred cchHHHhhccccccHHH-HHHHhhhcccCchhhhhccccCch
Confidence 47777665578888888 588888777644332 23344443
No 18
>KOG0511|consensus
Probab=42.75 E-value=5.5 Score=35.65 Aligned_cols=32 Identities=19% Similarity=0.068 Sum_probs=28.2
Q ss_pred ccEEEecCCCceEecccceeeecCCcchHHhhcC
Q psy16238 31 VDVTLARPRRRSGEACGAQDLSKCPAGSPDAFID 64 (123)
Q Consensus 31 ~DVtL~v~dg~~f~AHKv~VLAA~S~YFr~mF~~ 64 (123)
-||.+-+. |++|.+||+ ++++.|+||+-+|..
T Consensus 179 k~v~~~~~-~heI~~~~v-~~~~f~~flk~lyl~ 210 (516)
T KOG0511|consen 179 KDVMFYVQ-GHEIEAHRV-ILSAFSPFLKQLYLN 210 (516)
T ss_pred hhhhhccc-cCchhhhhh-hHhhhhHHHHHHHHh
Confidence 46777777 899999996 999999999999976
No 19
>KOG1987|consensus
Probab=37.55 E-value=17 Score=28.86 Aligned_cols=35 Identities=11% Similarity=-0.211 Sum_probs=25.6
Q ss_pred CccEEEec-CCCceEecccceeeecCCcchHHhhcCC
Q psy16238 30 LVDVTLAR-PRRRSGEACGAQDLSKCPAGSPDAFIDG 65 (123)
Q Consensus 30 l~DVtL~v-~dg~~f~AHKv~VLAA~S~YFr~mF~~~ 65 (123)
+.|+++.. .++..+.+|+ ++++|.|+.|+.|+...
T Consensus 98 ~~~~~~~~~~~~g~~~~~~-~~~~a~~~V~~~~~~~d 133 (297)
T KOG1987|consen 98 MLPLTLLIDCSNGFLVAHK-LVLVARSEVFEAMGKSD 133 (297)
T ss_pred ccChHHhhcccCcEEEcCc-eEEEeeecceeeecccc
Confidence 35554432 1255699999 59999999999999854
No 20
>smart00512 Skp1 Found in Skp1 protein family. Family of Skp1 (kinetochore protein required for cell cycle progression) and elongin C (subunit of RNA polymerase II transcription factor SIII) homologues.
Probab=35.57 E-value=22 Score=24.35 Aligned_cols=31 Identities=10% Similarity=-0.035 Sum_probs=25.5
Q ss_pred EEEecCCCceEecccceeeecCCcchHHhhcCC
Q psy16238 33 VTLARPRRRSGEACGAQDLSKCPAGSPDAFIDG 65 (123)
Q Consensus 33 VtL~v~dg~~f~AHKv~VLAA~S~YFr~mF~~~ 65 (123)
|+|...||..|...+. .|..|.-++.|+.+.
T Consensus 4 v~L~S~Dg~~f~v~~~--~a~~S~~i~~~l~~~ 34 (104)
T smart00512 4 IKLISSDGEVFEVERE--VARQSKTIKAMIEDL 34 (104)
T ss_pred EEEEeCCCCEEEecHH--HHHHHHHHHHHHHcc
Confidence 6888778999999994 456899999999753
No 21
>PF02214 BTB_2: BTB/POZ domain; InterPro: IPR003131 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. The Kv family can be divided into several subfamilies on the basis of sequence similarity and function. Four of these subfamilies, Kv1 (Shaker), Kv2 (Shab), Kv3 (Shaw) and Kv4 (Shal), consist of pore-forming alpha subunits that associate with different types of beta subunit. Each alpha subunit comprises six hydrophobic TM domains with a P-domain between the fifth and sixth, which partially resides in the membrane. The fourth TM domain has positively charged residues at every third residue and acts as a voltage sensor, which triggers the conformational change that opens the channel pore in response to a displacement in membrane potential []. More recently, 4 new electrically-silent alpha subunits have been cloned: Kv5 (KCNF), Kv6 (KCNG), Kv8 and Kv9 (KCNS). These subunits do not themselves possess any functional activity, but appear to form heteromeric channels with Kv2 subunits, and thus modulate Shab channel activity []. When highly expressed, they inhibit channel activity, but at lower levels show more specific modulatory actions. The N-terminal, cytoplasmic tetramerization domain (T1) of voltage-gated potassium channels encodes molecular determinants for subfamily-specific assembly of alpha-subunits into functional tetrameric channels []. This domain is found in a subset of a larger group of proteins that contain the BTB/POZ domain.; GO: 0005249 voltage-gated potassium channel activity, 0006813 potassium ion transport, 0008076 voltage-gated potassium channel complex, 0016020 membrane; PDB: 1NN7_A 3KVT_A 1EXB_E 1QDV_A 1DSX_E 1QDW_F 3LUT_B 3LNM_B 2A79_B 3DRY_C ....
Probab=26.94 E-value=20 Score=23.75 Aligned_cols=31 Identities=16% Similarity=-0.030 Sum_probs=25.9
Q ss_pred EEEecCCCceEecccceeee-cCCcchHHhhcCC
Q psy16238 33 VTLARPRRRSGEACGAQDLS-KCPAGSPDAFIDG 65 (123)
Q Consensus 33 VtL~v~dg~~f~AHKv~VLA-A~S~YFr~mF~~~ 65 (123)
|+|.|+ |+.|..-+. .|. ....||..||...
T Consensus 1 V~lNVG-G~~f~~~~~-tL~~~~~s~l~~~~~~~ 32 (94)
T PF02214_consen 1 VRLNVG-GTIFETSRS-TLTRYPDSLLARLFSGE 32 (94)
T ss_dssp EEEEET-TEEEEEEHH-HHHTSTTSTTTSHHHTG
T ss_pred CEEEEC-CEEEEEcHH-HHhhCCCChhhhHHhhc
Confidence 678997 999999995 777 6678999999864
No 22
>KOG3473|consensus
Probab=21.72 E-value=73 Score=23.51 Aligned_cols=31 Identities=6% Similarity=-0.101 Sum_probs=25.8
Q ss_pred EEEecCCCceEecccceeeecCCcchHHhhcCC
Q psy16238 33 VTLARPRRRSGEACGAQDLSKCPAGSPDAFIDG 65 (123)
Q Consensus 33 VtL~v~dg~~f~AHKv~VLAA~S~YFr~mF~~~ 65 (123)
|+|+.+||.+|-.-| -+|.-|+-.|+||.+.
T Consensus 19 VkLvS~Ddhefiikr--e~AmtSgTiraml~gp 49 (112)
T KOG3473|consen 19 VKLVSSDDHEFIIKR--EHAMTSGTIRAMLSGP 49 (112)
T ss_pred eEeecCCCcEEEEee--hhhhhhhHHHHHHcCC
Confidence 678888899988877 6778899999999863
No 23
>PF04343 DUF488: Protein of unknown function, DUF488; InterPro: IPR007438 This family includes several proteins of uncharacterised function.
Probab=21.11 E-value=57 Score=22.93 Aligned_cols=20 Identities=15% Similarity=0.132 Sum_probs=14.7
Q ss_pred EEEecCCCceEecccceeeec
Q psy16238 33 VTLARPRRRSGEACGAQDLSK 53 (123)
Q Consensus 33 VtL~v~dg~~f~AHKv~VLAA 53 (123)
|+|++.......|||. |||.
T Consensus 101 v~LlC~e~dp~~CHR~-iLa~ 120 (122)
T PF04343_consen 101 VALLCAEKDPERCHRR-ILAE 120 (122)
T ss_pred eEEEEEecChhcCcHH-HHHH
Confidence 7887643567999995 8874
Done!